This series of files compile analyses done for the global analysis of Chapter 1 (version of May 15th).

All analyses have been done with PRIMER-e 6 and R 3.6.3.

Click on the table of contents in the left margin to assess a specific analysis.
Click on a figure to zoom it

We used data from subtidal ecosystems (see metadata files for more information). Only stations that have been sampled both for abiotic parameters and benthic species were included.

Selected variables for the analyses:

Statistics for each variable considered (apart from species densities):

  Mean SD SE Median Min Max 95% CI
depth 22.362 18.426 1.184 18.250 1.000 77.000 2.321
om 1.168 1.072 0.069 0.810 0.168 8.260 0.135
gravel 0.035 0.115 0.007 0.000 0.000 0.809 0.014
sand 0.527 0.360 0.023 0.562 0.000 1.001 0.045
silt 0.273 0.285 0.018 0.152 0.000 0.942 0.036
clay 0.165 0.348 0.022 0.000 0.000 1.000 0.044
  Mean SD SE Median Min Max 95% CI
arsenic 3.559 2.568 0.194 2.700 0.80 21.30 0.380
cadmium 0.133 0.039 0.003 0.130 0.03 0.27 0.006
chromium 57.992 21.914 1.657 54.000 10.90 143.30 3.247
copper 11.205 6.436 0.486 9.900 2.20 32.40 0.953
iron 55387.011 21175.992 1600.755 53398.800 14089.92 188857.22 3137.421
manganese 1148.868 711.475 53.782 959.400 251.67 5962.19 105.412
mercury 0.021 0.025 0.002 0.017 0.00 0.25 0.004
lead 5.030 2.400 0.181 4.900 1.02 12.20 0.356
zinc 57.614 21.047 1.591 52.900 15.90 141.40 3.118
  Mean SD SE Median Min Max 95% CI
S 14.277 6.877 0.534 13.000 1 35.000 1.046
N 225.910 424.411 32.941 74.000 1 2103.000 64.563
H 1.787 0.509 0.039 1.861 0 2.737 0.077
J 0.710 0.173 0.013 0.727 0 1.000 0.026
  Mean SD SE Median Min Max 95% CI
S 7.579 4.435 0.312 7.000 0 19.000 0.612
N 39.624 61.123 4.301 24.500 0 674.000 8.429
H 1.417 0.640 0.045 1.482 0 2.646 0.088
J 0.750 0.232 0.016 0.823 0 1.000 0.032

1. Maps

1.1. General maps

All stations were not necessarily sampled for every variable characterization:

Habitat

Metals

0.5 mm community

1 mm community

1.2. Parameters maps

For maps of heavy metal concentrations, stations have been grouped based on Environment Canada (2007) classification of sediment toxicity (grey = low toxicity, red = high toxicity).

Depth

OM

Gravel

Sand

Silt

Clay

Arsenic

Cadmium

Chromium

Copper

Iron

Manganese

Mercury

Lead

Zinc

Richness (0.5 mm)

Density (0.5 mm)

Diversity (0.5 mm)

Evenness (0.5 mm)

Richness (1 mm)

Density (1 mm)

Diversity (1 mm)

Evenness (1 mm)

2. Figures

2.1. Phylum frequencies

Phylum abundances by community
phylum sp500 sp1000
Annelida 24797 2125
Arthropoda 6532 3066
Mollusca 2899 1765
Nematoda 1377 165
Phoronida 1140 0
Echinodermata 579 828
Cnidaria 86 6
Sipuncula 32 27
Bryozoa 30 0
Nemertea 21 17
Platyhelminthes 5 3
Hemichordata 2 0
Chaetognatha 1 0
Brachiopoda 0 2

2.2. Species estimation curves

0.5 mm community

1 mm community

2.3. Hierarchical Agglomerative Clustering

Habitat

Variables have been standardized by mean and standard-deviation.

Metals

Variables have been standardized by mean and standard-deviation.

0.5 mm community

Species densities have been transformed with a (log+1) operation.

1 mm community

Species densities have been transformed with a (log+1) operation. Stations with 0 individuals (80 and 88) have been deleted, as they were serious outliers for the plot.

2.4. Principal Component Analysis

Habitat

Variables have been standardized by mean and standard-deviation.

Metals

Variables have been standardized by mean and standard-deviation.

2.5. Non-metric Multidimensional Scaling

Habitat

Variables have been standardized by mean and standard-deviation.

Metals

Variables have been standardized by mean and standard-deviation.

0.5 mm community

Species densities have been transformed with a (log+1) operation.

1 mm community

Species densities have been transformed with a (log+1) operation. Stations with 0 or 1 individuals (80, 88 and 130) have been deleted, as they were serious outliers for the plot.

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